Strain identifier

BacDive ID: 4383

Type strain: Yes

Species: Kosakonia arachidis

Strain Designation: Ah-143

Strain history: CIP <- 2014, DSMZ <- KCTC <- M. Madhaiyan et al., Tamil Nadu Agric. Univ., Coimbatore, India: strain Ah-143

NCBI tax ID(s): 551989 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 9.3 (current version):
version 9.2:
version 9.1:
version 9:
version 8.1:
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 9.3 (current version)

General

@ref: 17926

BacDive-ID: 4383

DSM-Number: 25165

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped

description: Kosakonia arachidis Ah-143 is an aerobe, Gram-negative, motile bacterium that was isolated from rhizosphere soil of groundnut from experimental plots.

NCBI tax id

  • NCBI tax id: 551989
  • Matching level: species

strain history

@refhistory
17926<- KCTC <- M. Madhaiyan et al., Dept. Agricultural Microbiology, Tamil Nadu Agric. Univ., Coimbatore, India
67771<- M Madhaiyan, Tamilnadu Agri. Univ., India
116468CIP <- 2014, DSMZ <- KCTC <- M. Madhaiyan et al., Tamil Nadu Agric. Univ., Coimbatore, India: strain Ah-143

doi: 10.13145/bacdive4383.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Kosakonia
  • species: Kosakonia arachidis
  • full scientific name: Kosakonia arachidis (Madhaiyan et al. 2010) Brady et al. 2013

  • synonyms

    • @ref: 20215
    • synonym: Enterobacter arachidis

@ref: 17926

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Kosakonia

species: Kosakonia arachidis

full scientific name: Kosakonia arachidis (Madhaiyan et al. 2010) Brady et al. 2013

strain designation: Ah-143

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29467negative2-3.7 µm0.5-0.7 µmrod-shapedyes
67771negative
116468negativerod-shapedyes
125438negative100
125439negative97.4

pigmentation

  • @ref: 29467
  • production: no

multimedia

  • @ref: 17926
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_25165.jpg
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
41604MEDIUM 328- for nutrient agaryesDistilled water make up to (1000.000 ml);Agar (15.000 g);Peptone (5.000g);Beef extract (3.000 g)
116468CIP Medium 328yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=328
116468CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperature
29467positivegrowth20-30
29467positiveoptimum28
41604positivegrowth30
63346positivegrowth30
67771positivegrowth28

culture pH

@refabilitytypepHPH range
29467positivegrowth04-10alkaliphile
29467positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
29467aerobe
63346aerobe
67771aerobe
125439aerobe94.2

spore formation

@refspore formationconfidence
29467no
125438no90.504
125439no95.4

compound production

@refcompound
17926indole-3-acetic acid
179261 aminocyclopropane-1-carboxylate deaminase
17926nitrogenase

halophily

@refsaltgrowthtested relationconcentration
29467NaClpositivegrowth0-5 %
29467NaClpositiveoptimum0-5 %

observation

  • @ref: 29467
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2946718403L-arabitol+carbon source
2946716947citrate+carbon source
2946733984fucose+carbon source
2946726546rhamnose+carbon source
2946730911sorbitol+carbon source
2946730031succinate+carbon source
2946717992sucrose+carbon source
2946717632nitrate+reduction
6837417057cellobiose+builds acid from
6837430911sorbitol+builds acid from
6837417268myo-inositol-builds acid from
6837427082trehalose+builds acid from
6837430849L-arabinose+builds acid from
6837417992sucrose+builds acid from
6837417634D-glucose+builds acid from
6837427897tryptophan-energy source
6837415792malonate+assimilation
6837418394palatinose-builds acid from
6837417306maltose+builds acid from
6837416899D-mannitol+builds acid from
6837418024D-galacturonic acid+builds acid from
68374Potassium 5-ketogluconate-builds acid from
6837416199urea-hydrolysis
6837418257ornithine-degradation
6837462345L-rhamnose+builds acid from
6837418333D-arabitol-builds acid from
6837415963ribitol-builds acid from
6837418403L-arabitol-builds acid from
6837425094lysine-degradation
6837429016arginine-hydrolysis

metabolite production

  • @ref: 68374
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68374
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
29467catalase+1.11.1.6
29467cytochrome oxidase+1.9.3.1
68374alpha-maltosidase-
68374alpha-glucosidase-3.2.1.20
68374beta-galactosidase+3.2.1.23
68374L-aspartate arylamidase-3.4.11.21
68374alpha-galactosidase-3.2.1.22
68374N-acetyl-beta-glucosaminidase+3.2.1.52
68374beta-glucuronidase-3.2.1.31
68374beta-glucosidase+3.2.1.21
68374lipase-
68374urease-3.5.1.5
68374lysine decarboxylase-4.1.1.18
68374arginine dihydrolase-3.5.3.6
68374ornithine decarboxylase-4.1.1.17

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
63346-----+---+++---+-+++++---++-++--

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
17926rhizosphere soil of groundnut (Arachis hypogaea) from experimental plotsArachis hypogaeaTamilnadu UniversityIndiaINDAsia
63346Peanut root (Arachis hypogaea)IndiaINDAsia
67771From groundnut root (`Arachis hypogaea` L)IndiaINDAsia
116468Environment, Rhizosphere soil of groundnut, Arachis hypogaea, from experimental plotsTamilnaduIndiaINDAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Rhizosphere

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
179261Risk group (German classification)
1164681Risk group (French classification)

Sequence information

16S sequences

  • @ref: 17926
  • description: Enterobacter arachidis strain Ah-143 16S ribosomal RNA gene, partial sequence
  • accession: EU672801
  • length: 1426
  • database: nuccore
  • NCBI tax ID: 551989

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Kosakonia arachidis Ah-143GCA_900116535scaffoldncbi551989
66792Kosakonia arachidis Ah-1432651870175draftimg551989

GC content

  • @ref: 29467
  • GC-content: 53.2

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno100yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no95.704yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no73.383no
125438spore-formingspore-formingAbility to form endo- or exosporesno90.504yes
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno99.5no
125438motile2+flagellatedAbility to perform flagellated movementyes74.94no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno95.4
125439BacteriaNetmotilityAbility to perform movementyes69
125439BacteriaNetgram_stainReaction to gram-stainingnegative97.4
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthaerobe94.2

External links

@ref: 17926

culture collection no.: DSM 25165, KCTC 22375, LMG 26131, NCIMB 14469, CCUG 66539, CIP 110809

straininfo link

  • @ref: 73874
  • straininfo: 370181

literature

  • topic: Phylogeny
  • Pubmed-ID: 19684326
  • title: Enterobacter arachidis sp. nov., a plant-growth-promoting diazotrophic bacterium isolated from rhizosphere soil of groundnut.
  • authors: Madhaiyan M, Poonguzhali S, Lee JS, Saravanan VS, Lee KC, Santhanakrishnan P
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.013664-0
  • year: 2009
  • mesh: Arachis/*microbiology, Base Composition, Base Sequence, Enterobacter/*classification/genetics/isolation & purification/physiology, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, *Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
17926Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25165)https://www.dsmz.de/collection/catalogue/details/culture/DSM-25165
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
29467Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2587028776041
41604Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/30622
63346Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 66539)https://www.ccug.se/strain?id=66539
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68374Automatically annotated from API ID32E
73874Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID370181.1StrainInfo: A central database for resolving microbial strain identifiers
116468Curators of the CIPCollection of Institut Pasteur (CIP 110809)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110809
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1